vg::VariantAdder Member List

This is the complete list of members for vg::VariantAdder, including all inherited members.

add_name_mapping(const string &vcf_name, const string &fasta_name)	vg::NameMapper
add_variants(vcflib::VariantCallFile *vcf)	vg::VariantAdder
align_ns(vg::VG &graph, Alignment &aln)	vg::VariantAdder
aligner	vg::VariantAdder
create_progress(const string &message, long count)	vg::Progressive
create_progress(long count)	vg::Progressive
destroy_progress(void)	vg::Progressive
doubling_steps	vg::VariantAdder
edge_max	vg::VariantAdder
ensure_progress(long count)	vg::Progressive
fasta_to_vcf(const string &fasta_name) const	vg::NameMapper
fasta_to_vcf_renames	vg::NameMapper	protected
filter_local_variants(const vector< vcflib::Variant * > &before, vcflib::Variant *variant, const vector< vcflib::Variant * > &after) const	vg::VariantAdder	protected
flank_range	vg::VariantAdder
get_center(const vcflib::Variant &variant)	vg::VariantAdder	protectedstatic
get_center_and_radius(const vector< vcflib::Variant * > &variants)	vg::VariantAdder	protectedstatic
get_graph() const	vg::VariantAdder
get_radius(const vcflib::Variant &variant)	vg::VariantAdder	protectedstatic
get_unique_haplotypes(const vector< vcflib::Variant * > &variants, WindowedVcfBuffer *cache=nullptr) const	vg::VariantAdder	protected
graph	vg::VariantAdder	protected
haplotype_to_string(const vector< int > &haplotype, const vector< vcflib::Variant * > &variants)	vg::VariantAdder	protected
ignore_missing_contigs	vg::VariantAdder
increment_progress()	vg::Progressive
kmer_size	vg::VariantAdder
large_alignment_band_padding	vg::VariantAdder
last_progress	vg::Progressive	private
mapper_alignment_cutoff	vg::VariantAdder
max_context_radius	vg::VariantAdder
max_node_size	vg::VariantAdder
min_score_factor	vg::VariantAdder
path_names	vg::VariantAdder	protected
pinned_tail_size	vg::VariantAdder
preload_progress(const string &message)	vg::Progressive
print_updates	vg::VariantAdder
progress	vg::Progressive	private
progress_count	vg::Progressive	private
progress_message	vg::Progressive	private
progress_seen	vg::Progressive	private
show_progress	vg::Progressive
skip_structural_duplications	vg::VariantAdder
smart_align(vg::VG &graph, pair< NodeSide, NodeSide > endpoints, const string &to_align, size_t max_span)	vg::VariantAdder
subgraph_prune	vg::VariantAdder
sync	vg::VariantAdder	protected
thin_alignment_cutoff	vg::VariantAdder
update_progress(long i)	vg::Progressive
variant_range	vg::VariantAdder
VariantAdder(VG &graph)	vg::VariantAdder
vcf_to_fasta(const string &vcf_name) const	vg::NameMapper
vcf_to_fasta_renames	vg::NameMapper	protected
whole_alignment_cutoff	vg::VariantAdder
with_progress(bool show_progress, const std::string &task, const std::function< void(const std::function< void(size_t, size_t)> &progress)> &callback)	vg::Progressive	static